AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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August 05, 2003 03:51PM

Hello Jen:

First, for ANOVA, the 3dANOVA3 -type 5 "crossed-nested" model is appropriate,
since you have fixed factor A (Group), fixed factor B (Task), and random factor
C (Subject) nested within factor A. By saying that factor C is "nested" within
factor A, we mean that Subject #7 in Group #1 for Task #1 is the same as
Subject #7 in Group #1 for Task #2 (and Task #3, and Task #4). However,
Subject #7 in Group #1 is NOT the same as Subject #7 in Group #2 (at any Task).
Using 3dANOVA3 -type 5 model, you can test for factor A (Group) main effect,
factor B (Task) main effect, and AxB (Group x Task) interaction.

The 3dANOVA2 -type 3 "mixed effects" model with fixed factor A (Task) and
random factor B (Subject) is NOT appropriate for comparing across Groups,
since Subject #7 in Group 1 is different from Subject #7 in Group 2. Also,
I don't see how you would indicate Group membership using that model.

Returning to 3dANOVA3: For technical reasons, the "-xdiff" option for
performing a t-test across individual cells is not available with the -type 5
model. By performing the t-test external to 3dANOVA3, you are sacrificing
some statistical power, since the measurement variance is estimated using only
the datasets that you input for that t-test (i.e., fewer DOF). For example, if
you perform a t-test between Groups for Task #3, the measurement variance is
estimated only from the data collected for Task #3. On the other hand, this
does avoid making the assumption that variance is constant across all of the
different Tasks. So, there is something to be said for this approach.

Doug Ward
Subject Author Posted

3dANOVA3 type 5

Jen August 04, 2003 03:24PM

Re: 3dANOVA3 type 5

Gang Chen August 04, 2003 04:43PM

Re: 3dANOVA3 type 5

Jen August 04, 2003 05:40PM

Re: 3dANOVA3 type 5

B. Douglas Ward August 04, 2003 06:34PM

Re: 3dANOVA3 type 5

jennifer August 05, 2003 01:22PM

Re: 3dANOVA3 type 5

Gang Chen August 04, 2003 06:57PM

Re: 3dANOVA3 type 5

jennifer August 05, 2003 02:51PM

Re: 3dANOVA3 type 5

B. Douglas Ward August 05, 2003 03:51PM